Scientific

MK5 Microarray Data

Affected Genes - Ontology Breakdown - Gene Enrichment - Proteome Analysis

These are the micro-array results of a differential gene expression microarray experiments and the subsequent analysis steps performed on them. The up/down- regulation ratio was obtained by measuring WT cells against MK5 activated cells. See material and methods for technical information as well as the data usage policy.

MK5 Proteome Analysis

Table 3: Type II network, divided ranks. This table presents the output of the simulation of a type-II network in which we relied on the high confidence interactions and micro-array results. The output of the micro-array was then ranked and these ranks used as input into the network simulation. After performing two such simulations (one for the MK5 off and one for the MK5 on microarray output), we divided the ranks and sorted the results accordingly. The output of this technique is a collection of proteins that cluster naturally together.


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Value Type Network Comparison Type Gene description Rank Filtered Interaction Map green red network_comparison
Results: HTML CSV LaTeX Showing element 2451 to 2500 of 3228 in total
Value Type  : Ranked
Network Comparison Type  : Divided
Filtered  : 1
Interaction Map  : High confidence
description
Rank
green
red
network_comparison
schwannomin interacting protein 1. [refseq;acc:nm_014575] 2900 0.00001 0.00001 1
scratch; scratch 1. [refseq;acc:nm_031309] 1873 208.305 210.55 1.01078
scribble. [refseq;acc:nm_015356] 2528 222.291 221.782 1.0023
scy1-like 1; telomerase regulation-associated protein; ht019 protein; telomerase regulation-associated protein; n-terminal kinase-like protein; teratoma-associated tyrosine kinase; n-terminal kinase-like. [refseq;acc:nm_020680] 1575 218.982 222.585 1.01645
sec13-related protein. [swissprot;acc:p55735] 1133 212.675 218.484 1.02731
sec23-interacting protein p125; phospholipase. [refseq;acc:nm_007190] 3097 0.00001 0.00001 1
secreted modular calcium-binding protein 1. [refseq;acc:nm_022137] 1644 214.149 217.256 1.01451
secreted modular calcium-binding protein 2; smooth muscle associated protein 2. [refseq;acc:nm_022138] 1646
secretory carrier-associated membrane protein 1. [swissprot;acc:o15126] 2453 205.332 204.688 1.00315
secretory carrier-associated membrane protein 2. [swissprot;acc:o15127] 2451 205.333
secretory carrier-associated membrane protein 3. [swissprot;acc:o14828] 2452
secretory pathway component sec31b-1. [refseq;acc:nm_015490] 1143 212.675 218.484 1.02731
sedlin. [swissprot;acc:o14582] 565 121.261 129.219 1.06563
segment polarity protein dishevelled homolog dvl-1 (dishevelled-1) (dsh homolog 1). [swissprot;acc:o14640] 513 204.344 218.596 1.06975
segment polarity protein dishevelled homolog dvl-2 (dishevelled-2) (dsh homolog 2). [swissprot;acc:o14641] 514 204.382 218.613 1.06963
segment polarity protein dishevelled homolog dvl-3 (dishevelled-3) (dsh homolog 3). [swissprot;acc:q92997] 519 204.582 218.702 1.06902
selenide,water dikinase 1 (ec 2.7.9.3) (selenophosphate synthetase 1) (selenium donor protein 1). [swissprot;acc:p49903] 543 208.201 222.156 1.06703
selenide,water dikinase 2 (ec 2.7.9.3) (selenophosphate synthetase 2) (selenium donor protein 2). [swissprot;acc:q99611] 540
semaphorin 6b precursor (semaphorin z) (sema z). [swissprot;acc:q9h3t3] 2832 0.00001 0.00001 1
semaphorin 6c precursor (semaphorin y) (sema y). [swissprot;acc:q9h3t2] 2933
semaphorin 6d isoform 3 precursor. [refseq;acc:nm_153617] 2964
senescence marker protein-30 (smp-30) (regucalcin) (rc). [swissprot;acc:q15493] 503 255.68 238.704 1.07112
sentrin-specific protease 8 (ec 3.4.22.-) (sentrin/sumo-specific protease senp8) (cysteine protease fksg8). [swissprot;acc:q96ld8] 2843 0.00001 0.00001 1
seprase (ec 3.4.21.-) (fibroblast activation protein alpha) (integral membrane serine protease) (170-kda melanoma membrane-bound gelatinase). [swissprot;acc:q12884] 1517 209.511 213.267 1.01793
septin 1 (larp) (serologically defined breast cancer antigen ny-br- 24). [swissprot;acc:q8wyj6] 909 136.846 142.077 1.03823
septin 10 isoform 1. [refseq;acc:nm_144710] 737 119.402 125.526 1.05129
septin 4 (peanut-like protein 2) (brain protein h5) (cell division control-related protein 2) (hcdcrel-2) (bradeion beta) (ce5b3 beta) (cerebral protein-7) (hucep-7). [swissprot;acc:o43236] 829 130.259 135.844 1.04288
septin 6. [swissprot;acc:q14141] 744 120.463 126.604 1.05098
septin 7 (cdc10 protein homolog). [swissprot;acc:q16181] 743 120.078 126.215 1.05111
septin-like protein kiaa0202 (fragment). [swissprot;acc:q92599] 732 118.318 124.434 1.05169
sequestosome 1; ubiquitin-binding protein p62; phosphotyrosine independent ligand for the lck sh2 domain p62. [refseq;acc:nm_003900] 799 212.404 221.965 1.04501
serine hydroxymethyltransferase, cytosolic (ec 2.1.2.1) (serine methylase) (glycine hydroxymethyltransferase) (shmt). [swissprot;acc:p34896] 1617 217.699 221.045 1.01537
serine hydroxymethyltransferase, mitochondrial precursor (ec 2.1.2.1) (serine methylase) (glycine hydroxymethyltransferase) (shmt). [swissprot;acc:p34897] 1638 217.481 220.686 1.01474
serine palmitoyltransferase 1 (ec 2.3.1.50) (long chain base biosynthesis protein 1) (lcb 1) (serine-palmitoyl-coa transferase 1) (spt 1) (spt1). [swissprot;acc:o15269] 1775 210.274 207.757 1.01212
serine palmitoyltransferase 2 (ec 2.3.1.50) (long chain base biosynthesis protein 2) (lcb 2) (serine-palmitoyl-coa transferase 2) (spt 2). [swissprot;acc:o15270] 1107 210.324 204.603 1.02796
serine protease htra1 precursor (ec 3.4.21.-) (l56). [swissprot;acc:q92743] 992 211.357 218.468 1.03364
serine protease htra2, mitochondrial precursor (ec 3.4.21.-) (high temperature requirement protein a2) (htra2) (omi stress-regulated endoprotease) (serine proteinase omi). [swissprot;acc:o43464] 987 211.338 218.459 1.03369
serine racemase (ec 5.1.1.-). [swissprot;acc:q9gzt4] 307 266.673 242.153 1.10126
serine--pyruvate aminotransferase (ec 2.6.1.51) (spt) (alanine-- glyoxylate aminotransferase) (ec 2.6.1.44) (agt). [swissprot;acc:p21549] 2753 208.846 208.859 1.00006
serine/threonine kinase 38 like. [refseq;acc:nm_015000] 2897 0.00001 0.00001 1
serine/threonine kinase 38; serine threonine protein kinase. [refseq;acc:nm_007271] 3071
serine/threonine kinase 6 (ec 2.7.1.37) (serine/threonine kinase 15) (aurora/ipl1-related kinase 1) (aurora-related kinase 1) (hark1) (aurora-a) (breast-tumor-amplified kinase). [swissprot;acc:o14965] 2569 220.267 219.907 1.00164
serine/threonine protein kinase 12 (ec 2.7.1.37) (aurora- and ipl1- like midbody-associated protein 1) (aim-1) (aurora/ipl1-related kinase 2) (aurora-related kinase 2) (stk-1) (aurora-b). [swissprot;acc:q96gd4] 2566
serine/threonine protein kinase 13 (ec 2.7.1.37) (aurora/ipl1/eg2 protein 2) (aurora/ipl1-related kinase 3) (aurora-c). [swissprot;acc:q9uqb9] 2568
serine/threonine protein kinase 23 (ec 2.7.1.37) (muscle-specific serine kinase 1) (mssk-1). [swissprot;acc:q9upe1] 1678 213.889 216.899 1.01407
serine/threonine protein kinase 24 (ec 2.7.1.37) (ste20-like kinase mst3) (mst-3) (mammalian ste20-like protein kinase 3). [swissprot;acc:q9y6e0] 3115 0.00001 0.00001 1
serine/threonine protein kinase 25 (ec 2.7.1.37) (sterile 20/oxidant stress-response kinase 1) (ste20/oxidant stress response kinase-1) (sok-1) (ste20-like kinase). [swissprot;acc:o00506] 3048
serine/threonine protein kinase 3 (ec 2.7.1.37) (ste20-like kinase mst2) (mst-2) (mammalian ste20-like protein kinase 2) (serine/threonine protein kinase krs-1). [swissprot;acc:q13188] 3111
serine/threonine protein kinase mask; ste20-like kinase mst4. [refseq;acc:nm_016542] 2982
serine/threonine protein phosphatase 2a, 55 kda regulatory subunit b, alpha isoform (pp2a, subunit b, b-alpha isoform) (pp2a, subunit b, b55-alpha isoform) (pp2a, subunit b, pr55-alpha isoform) (pp2a, subunit b, r2-alpha isoform). [swissprot;acc:q00007] 30 243.678 187.457 1.29991

Legend:
- Rank is the rank after comparing the two networks
- Gene is the ensembl human gene identifier measured by 1 or more probes on the microarray
- Value Type describes how the microarray measurement was processed. Ranked indicates that we sorted all measurements and use the rank as red and green value. Measured is the normal measurement. Squared and Rooted are the square and square root respecitcely. This might be valueable to compensate for non linear light distributions.
- Network Comparison Type describes whether we divided the red and green types or whether we sutractcted them
- Interaction Map specifies whether we used only the hig hconfidence protein-protein interactions or also included the low confidence interactions.
- Filtered specifies whether we only included the high confidence microarry measurements or not.
- http://analysis.yellowcouch.org/